noone@mail.com Analysis of Dieting study 16S data % Fri Sep 7 05:46:18 2018

(1.3.1.2.5) Plots of Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'.

Plots are shown with relation to various combinations of meta data variables and in different graphical representations. Lots of plots here.

(1.3.1.2.5.2) Iterating over all combinations of grouping variables
(1.3.1.2.5.2.1) Entire pool of samples
(1.3.1.2.5.2.2) Iterating over Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. profile sorting order
(1.3.1.2.5.2.2.1) Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. profile sorting order: GeneSelector paired test ranking
(1.3.1.2.5.2.2.2) Iterating over dodged vs faceted bars

The same data are shown in multiple combinations of graphical representations. This is the same data, but each plot highlights slightly different aspects of it. It is not likely that you will need every plot - pick only what you need.

(1.3.1.2.5.2.2.2.1) faceted plots. Iterating over orientation and, optionally, scaling
(1.3.1.2.5.2.2.2.1.1) Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.3.1.2.5.2.2.2.1.1.0) Table 120. Data table used for plots. Data for all pooled samples. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.3.1.2.5.2.2.2.1.1.0-3234a140df8.1.3.1.2.5.2.2.2.1.1.csv

.record.id feature l2fc
MG1.patient Bacteroidales 1.79821
MG10.patient Bacteroidales 0.42787
MG13.patient Bacteroidales 0.07411
MG14.patient Bacteroidales 0.63994
MG16.patient Bacteroidales 0.43466
MG17.patient Bacteroidales -2.45355
MG19.patient Bacteroidales 0.74207
MG2.patient Bacteroidales -2.65506
MG21.patient Bacteroidales 0.25734
MG22.patient Bacteroidales 0.04676
MG23.patient Bacteroidales 1.79003
MG25.patient Bacteroidales 0.11849
MG3.patient Bacteroidales 0.14523
MG4.patient Bacteroidales 0.17717
MG6.patient Bacteroidales 0.26098
MG8.patient Bacteroidales 0.45354
MG1.patient Clostridiales -3.50280
MG10.patient Clostridiales -2.71153
MG13.patient Clostridiales -0.65366
MG14.patient Clostridiales -1.45767
MG16.patient Clostridiales -0.32817
MG17.patient Clostridiales 1.02526
MG19.patient Clostridiales -2.32264
MG2.patient Clostridiales -0.69743
MG21.patient Clostridiales -1.94949
MG22.patient Clostridiales -1.09895
MG23.patient Clostridiales -2.19684
MG25.patient Clostridiales -1.40789
MG3.patient Clostridiales -1.24956
MG4.patient Clostridiales 0.43098
MG6.patient Clostridiales -0.82551
MG8.patient Clostridiales -2.57281
MG1.patient Erysipelotrichales 3.13722
MG10.patient Erysipelotrichales -35.25318
MG13.patient Erysipelotrichales -1.65339
MG14.patient Erysipelotrichales 0.75050
MG16.patient Erysipelotrichales 0.30622
MG17.patient Erysipelotrichales -0.28555
MG19.patient Erysipelotrichales -2.62196
MG2.patient Erysipelotrichales 7.51187
MG21.patient Erysipelotrichales 2.74251
MG22.patient Erysipelotrichales 1.68772
MG23.patient Erysipelotrichales -4.28491
MG25.patient Erysipelotrichales -36.43505
MG3.patient Erysipelotrichales -1.64565
MG4.patient Erysipelotrichales 3.23607
MG6.patient Erysipelotrichales 0.80364
MG8.patient Erysipelotrichales -1.19167
MG1.patient Lactobacillales -1.34822
MG10.patient Lactobacillales 2.82045
MG13.patient Lactobacillales 1.04704
MG14.patient Lactobacillales -1.84641
MG16.patient Lactobacillales 0.94922
MG17.patient Lactobacillales 3.76804
MG19.patient Lactobacillales -36.95332
MG2.patient Lactobacillales 9.83525
MG21.patient Lactobacillales -3.14824
MG22.patient Lactobacillales 3.75823
MG23.patient Lactobacillales 0.75261
MG25.patient Lactobacillales 33.99639
MG3.patient Lactobacillales -1.69749
MG4.patient Lactobacillales -4.63004
MG6.patient Lactobacillales -36.48208
MG8.patient Lactobacillales 3.17845
MG1.patient Selenomonadales -11.52651
MG10.patient Selenomonadales 0.00000
MG13.patient Selenomonadales -3.77058
MG14.patient Selenomonadales 5.09845
MG16.patient Selenomonadales -0.17036
MG17.patient Selenomonadales 2.25099
MG19.patient Selenomonadales 0.42242
MG2.patient Selenomonadales -35.44176
MG21.patient Selenomonadales 4.35555
MG22.patient Selenomonadales 0.54521
MG23.patient Selenomonadales -1.24739
MG25.patient Selenomonadales -3.02361
MG3.patient Selenomonadales -2.50573
MG4.patient Selenomonadales -1.28041
MG6.patient Selenomonadales -0.77869
MG8.patient Selenomonadales -2.35137
MG1.patient Enterobacteriales -36.20716
MG10.patient Enterobacteriales -34.25318
MG13.patient Enterobacteriales -35.97371
MG14.patient Enterobacteriales 31.86066
MG16.patient Enterobacteriales 36.81820
MG17.patient Enterobacteriales 10.74046
MG19.patient Enterobacteriales 0.00000
MG2.patient Enterobacteriales 3.03937
MG21.patient Enterobacteriales 0.02168
MG22.patient Enterobacteriales -33.90442
MG23.patient Enterobacteriales -34.20640
MG25.patient Enterobacteriales 0.00000
MG3.patient Enterobacteriales 0.00000
MG4.patient Enterobacteriales -0.10787
MG6.patient Enterobacteriales -2.57715
MG8.patient Enterobacteriales -34.78946
MG1.patient Burkholderiales -1.02121
MG10.patient Burkholderiales -42.24994
MG13.patient Burkholderiales 0.42324
MG14.patient Burkholderiales 39.18255
MG16.patient Burkholderiales -4.67077
MG17.patient Burkholderiales -8.27369
MG19.patient Burkholderiales -36.07886
MG2.patient Burkholderiales -2.18944
MG21.patient Burkholderiales 4.57945
MG22.patient Burkholderiales 1.26638
MG23.patient Burkholderiales 38.28092
MG25.patient Burkholderiales 4.72101
MG3.patient Burkholderiales -5.32976
MG4.patient Burkholderiales 1.64700
MG6.patient Burkholderiales 2.23663
MG8.patient Burkholderiales -1.74912
MG1.patient Unclassified_Bacteria -2.08337
MG10.patient Unclassified_Bacteria -39.16003
MG13.patient Unclassified_Bacteria -0.33628
MG14.patient Unclassified_Bacteria -2.86270
MG16.patient Unclassified_Bacteria -0.56534
MG17.patient Unclassified_Bacteria -1.49259
MG19.patient Unclassified_Bacteria -2.70090
MG2.patient Unclassified_Bacteria -2.80825
MG21.patient Unclassified_Bacteria -3.49394
MG22.patient Unclassified_Bacteria -1.14862
MG23.patient Unclassified_Bacteria 0.88028
MG25.patient Unclassified_Bacteria -0.89808
MG3.patient Unclassified_Bacteria 0.08741
MG4.patient Unclassified_Bacteria -1.28956
MG6.patient Unclassified_Bacteria 0.71306
MG8.patient Unclassified_Bacteria -1.04651
MG1.patient Bifidobacteriales -40.49228
MG10.patient Bifidobacteriales -34.83815
MG13.patient Bifidobacteriales 31.34833
MG14.patient Bifidobacteriales 34.66802
MG16.patient Bifidobacteriales 33.81820
MG17.patient Bifidobacteriales -0.09207
MG19.patient Bifidobacteriales -1.89950
MG2.patient Bifidobacteriales 0.10077
MG21.patient Bifidobacteriales -37.28922
MG22.patient Bifidobacteriales 5.87361
MG23.patient Bifidobacteriales -38.20638
MG25.patient Bifidobacteriales -36.52251
MG3.patient Bifidobacteriales -35.07554
MG4.patient Bifidobacteriales -0.46150
MG6.patient Bifidobacteriales -33.16016
MG8.patient Bifidobacteriales -4.29889
MG1.patient Verrucomicrobiales 0.00000
MG10.patient Verrucomicrobiales 35.07363
MG13.patient Verrucomicrobiales 0.00000
MG14.patient Verrucomicrobiales 0.00000
MG16.patient Verrucomicrobiales 0.00000
MG17.patient Verrucomicrobiales 0.00000
MG19.patient Verrucomicrobiales -33.49389
MG2.patient Verrucomicrobiales 0.00000
MG21.patient Verrucomicrobiales -6.23569
MG22.patient Verrucomicrobiales 3.31688
MG23.patient Verrucomicrobiales -0.39939
MG25.patient Verrucomicrobiales -34.02001
MG3.patient Verrucomicrobiales 31.89262
MG4.patient Verrucomicrobiales 0.00000
MG6.patient Verrucomicrobiales 0.43982
MG8.patient Verrucomicrobiales 0.00000
MG1.patient Unclassified_Firmicutes -2.22284
MG10.patient Unclassified_Firmicutes -38.74501
MG13.patient Unclassified_Firmicutes -2.67542
MG14.patient Unclassified_Firmicutes -0.50166
MG16.patient Unclassified_Firmicutes -3.52011
MG17.patient Unclassified_Firmicutes -0.51908
MG19.patient Unclassified_Firmicutes -1.74750
MG2.patient Unclassified_Firmicutes 0.32629
MG21.patient Unclassified_Firmicutes -2.22624
MG22.patient Unclassified_Firmicutes 1.02127
MG23.patient Unclassified_Firmicutes -3.41730
MG25.patient Unclassified_Firmicutes -37.24240
MG3.patient Unclassified_Firmicutes -0.82808
MG4.patient Unclassified_Firmicutes -1.98234
MG6.patient Unclassified_Firmicutes -0.65911
MG8.patient Unclassified_Firmicutes -1.76640
MG1.patient Rhizobiales 0.01693
MG10.patient Rhizobiales -35.57511
MG13.patient Rhizobiales 0.57756
MG14.patient Rhizobiales -0.72556
MG16.patient Rhizobiales -0.39181
MG17.patient Rhizobiales -3.63633
MG19.patient Rhizobiales 0.00000
MG2.patient Rhizobiales -3.62239
MG21.patient Rhizobiales -5.79207
MG22.patient Rhizobiales -0.69403
MG23.patient Rhizobiales 0.00000
MG25.patient Rhizobiales -2.20417
MG3.patient Rhizobiales -2.30447
MG4.patient Rhizobiales -31.53198
MG6.patient Rhizobiales -37.40808
MG8.patient Rhizobiales -2.28098

(1.3.1.2.5.2.2.2.1.1.1) Widget 130. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Stacked Bar Chart. Data for all pooled samples. Click to see HTML widget file in full window: ./1.3.1.2.5.2.2.2.1.1.1-3231ce7dc0fDynamic.Pivot.Table.html

(1.3.1.2.5.2.2.2.1.1.1) Widget 131. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Table Barchart. Data for all pooled samples. Click to see HTML widget file in full window: ./1.3.1.2.5.2.2.2.1.1.1-32314d5f722Dynamic.Pivot.Table.html

(1.3.1.2.5.2.2.2.1.1.1) Table 121. Summary table. Data for all pooled samples. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.3.1.2.5.2.2.2.1.1.1-32315ed0d7b.1.3.1.2.5.2.2.2.1.1.csv

feature mean sd median incidence
Clostridiales -1.3449 1.187 -1.32873 0.1250
Unclassified_Firmicutes -6.0441 12.537 -1.87437 0.1250
Unclassified_Bacteria -3.6378 9.559 -1.21909 0.1875
Rhizobiales -7.8483 13.541 -2.24257 0.1250
Bacteroidales 0.1411 1.181 0.25916 0.8750
Bifidobacteriales -9.7830 27.351 -3.09920 0.3125
Selenomonadales -3.0890 9.401 -1.01304 0.3125
Erysipelotrichales -3.9497 12.757 0.01034 0.5000
Lactobacillales -1.6250 16.320 0.85091 0.5625
Burkholderiales -0.5766 20.433 -0.29898 0.5000
Enterobacteriales -8.0962 24.168 -0.05393 0.3125
Verrucomicrobiales -0.2141 17.466 0.00000 0.2500

(1.3.1.2.5.2.2.2.1.1.1) Figure 480. Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. bar_stacked plot. Image file: plots/3233f00d15f.svg.

(1.3.1.2.5.2.2.2.1.1.1) Figure 481. Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. bar (sample median) plot. Image file: plots/3238581ef3.svg.

(1.3.1.2.5.2.2.2.1.1.1) Figure 482. Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/3232de3bce.svg.

(1.3.1.2.5.2.2.2.1.1.1) Figure 483. Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/3234bda4f35.svg.

(1.3.1.2.5.2.2.2.1.2) Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.3.1.2.5.2.2.2.1.2.1) Figure 484. Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. bar (sample median) plot. Image file: plots/3232ac62d4e.svg.

(1.3.1.2.5.2.2.2.1.2.1) Figure 485. Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/32340f53d65.svg.

(1.3.1.2.5.2.2.2.1.2.1) Figure 486. Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/32362409564.svg.

(1.3.1.2.5.2.3) Grouping variables age.quant
(1.3.1.2.5.2.4) Iterating over Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. profile sorting order
(1.3.1.2.5.2.4.1) Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. profile sorting order: GeneSelector paired test ranking
(1.3.1.2.5.2.4.2) Iterating over dodged vs faceted bars

The same data are shown in multiple combinations of graphical representations. This is the same data, but each plot highlights slightly different aspects of it. It is not likely that you will need every plot - pick only what you need.

(1.3.1.2.5.2.4.2.1) faceted plots. Iterating over orientation and, optionally, scaling
(1.3.1.2.5.2.4.2.1.1) Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.3.1.2.5.2.4.2.1.1.0) Table 122. Data table used for plots. Data grouped by age.quant. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.3.1.2.5.2.4.2.1.1.0-323684c0743.1.3.1.2.5.2.4.2.1.1.csv

.record.id age.quant feature l2fc
MG1.patient (15.3,26.4] Bacteroidales 1.79821
MG10.patient (8.71,15.3] Bacteroidales 0.42787
MG13.patient (15.3,26.4] Bacteroidales 0.07411
MG14.patient (15.3,26.4] Bacteroidales 0.63994
MG16.patient (15.3,26.4] Bacteroidales 0.43466
MG17.patient (15.3,26.4] Bacteroidales -2.45355
MG19.patient (6.27,8.71] Bacteroidales 0.74207
MG2.patient (8.71,15.3] Bacteroidales -2.65506
MG21.patient (15.3,26.4] Bacteroidales 0.25734
MG22.patient (8.71,15.3] Bacteroidales 0.04676
MG23.patient (6.27,8.71] Bacteroidales 1.79003
MG25.patient [3.18,6.27] Bacteroidales 0.11849
MG3.patient (6.27,8.71] Bacteroidales 0.14523
MG4.patient (6.27,8.71] Bacteroidales 0.17717
MG6.patient (8.71,15.3] Bacteroidales 0.26098
MG8.patient [3.18,6.27] Bacteroidales 0.45354
MG1.patient (15.3,26.4] Clostridiales -3.50280
MG10.patient (8.71,15.3] Clostridiales -2.71153
MG13.patient (15.3,26.4] Clostridiales -0.65366
MG14.patient (15.3,26.4] Clostridiales -1.45767
MG16.patient (15.3,26.4] Clostridiales -0.32817
MG17.patient (15.3,26.4] Clostridiales 1.02526
MG19.patient (6.27,8.71] Clostridiales -2.32264
MG2.patient (8.71,15.3] Clostridiales -0.69743
MG21.patient (15.3,26.4] Clostridiales -1.94949
MG22.patient (8.71,15.3] Clostridiales -1.09895
MG23.patient (6.27,8.71] Clostridiales -2.19684
MG25.patient [3.18,6.27] Clostridiales -1.40789
MG3.patient (6.27,8.71] Clostridiales -1.24956
MG4.patient (6.27,8.71] Clostridiales 0.43098
MG6.patient (8.71,15.3] Clostridiales -0.82551
MG8.patient [3.18,6.27] Clostridiales -2.57281
MG1.patient (15.3,26.4] Erysipelotrichales 3.13722
MG10.patient (8.71,15.3] Erysipelotrichales -35.25318
MG13.patient (15.3,26.4] Erysipelotrichales -1.65339
MG14.patient (15.3,26.4] Erysipelotrichales 0.75050
MG16.patient (15.3,26.4] Erysipelotrichales 0.30622
MG17.patient (15.3,26.4] Erysipelotrichales -0.28555
MG19.patient (6.27,8.71] Erysipelotrichales -2.62196
MG2.patient (8.71,15.3] Erysipelotrichales 7.51187
MG21.patient (15.3,26.4] Erysipelotrichales 2.74251
MG22.patient (8.71,15.3] Erysipelotrichales 1.68772
MG23.patient (6.27,8.71] Erysipelotrichales -4.28491
MG25.patient [3.18,6.27] Erysipelotrichales -36.43505
MG3.patient (6.27,8.71] Erysipelotrichales -1.64565
MG4.patient (6.27,8.71] Erysipelotrichales 3.23607
MG6.patient (8.71,15.3] Erysipelotrichales 0.80364
MG8.patient [3.18,6.27] Erysipelotrichales -1.19167
MG1.patient (15.3,26.4] Lactobacillales -1.34822
MG10.patient (8.71,15.3] Lactobacillales 2.82045
MG13.patient (15.3,26.4] Lactobacillales 1.04704
MG14.patient (15.3,26.4] Lactobacillales -1.84641
MG16.patient (15.3,26.4] Lactobacillales 0.94922
MG17.patient (15.3,26.4] Lactobacillales 3.76804
MG19.patient (6.27,8.71] Lactobacillales -36.95332
MG2.patient (8.71,15.3] Lactobacillales 9.83525
MG21.patient (15.3,26.4] Lactobacillales -3.14824
MG22.patient (8.71,15.3] Lactobacillales 3.75823
MG23.patient (6.27,8.71] Lactobacillales 0.75261
MG25.patient [3.18,6.27] Lactobacillales 33.99639
MG3.patient (6.27,8.71] Lactobacillales -1.69749
MG4.patient (6.27,8.71] Lactobacillales -4.63004
MG6.patient (8.71,15.3] Lactobacillales -36.48208
MG8.patient [3.18,6.27] Lactobacillales 3.17845
MG1.patient (15.3,26.4] Selenomonadales -11.52651
MG10.patient (8.71,15.3] Selenomonadales 0.00000
MG13.patient (15.3,26.4] Selenomonadales -3.77058
MG14.patient (15.3,26.4] Selenomonadales 5.09845
MG16.patient (15.3,26.4] Selenomonadales -0.17036
MG17.patient (15.3,26.4] Selenomonadales 2.25099
MG19.patient (6.27,8.71] Selenomonadales 0.42242
MG2.patient (8.71,15.3] Selenomonadales -35.44176
MG21.patient (15.3,26.4] Selenomonadales 4.35555
MG22.patient (8.71,15.3] Selenomonadales 0.54521
MG23.patient (6.27,8.71] Selenomonadales -1.24739
MG25.patient [3.18,6.27] Selenomonadales -3.02361
MG3.patient (6.27,8.71] Selenomonadales -2.50573
MG4.patient (6.27,8.71] Selenomonadales -1.28041
MG6.patient (8.71,15.3] Selenomonadales -0.77869
MG8.patient [3.18,6.27] Selenomonadales -2.35137
MG1.patient (15.3,26.4] Enterobacteriales -36.20716
MG10.patient (8.71,15.3] Enterobacteriales -34.25318
MG13.patient (15.3,26.4] Enterobacteriales -35.97371
MG14.patient (15.3,26.4] Enterobacteriales 31.86066
MG16.patient (15.3,26.4] Enterobacteriales 36.81820
MG17.patient (15.3,26.4] Enterobacteriales 10.74046
MG19.patient (6.27,8.71] Enterobacteriales 0.00000
MG2.patient (8.71,15.3] Enterobacteriales 3.03937
MG21.patient (15.3,26.4] Enterobacteriales 0.02168
MG22.patient (8.71,15.3] Enterobacteriales -33.90442
MG23.patient (6.27,8.71] Enterobacteriales -34.20640
MG25.patient [3.18,6.27] Enterobacteriales 0.00000
MG3.patient (6.27,8.71] Enterobacteriales 0.00000
MG4.patient (6.27,8.71] Enterobacteriales -0.10787
MG6.patient (8.71,15.3] Enterobacteriales -2.57715
MG8.patient [3.18,6.27] Enterobacteriales -34.78946
MG1.patient (15.3,26.4] Burkholderiales -1.02121
MG10.patient (8.71,15.3] Burkholderiales -42.24994
MG13.patient (15.3,26.4] Burkholderiales 0.42324
MG14.patient (15.3,26.4] Burkholderiales 39.18255
MG16.patient (15.3,26.4] Burkholderiales -4.67077
MG17.patient (15.3,26.4] Burkholderiales -8.27369
MG19.patient (6.27,8.71] Burkholderiales -36.07886
MG2.patient (8.71,15.3] Burkholderiales -2.18944
MG21.patient (15.3,26.4] Burkholderiales 4.57945
MG22.patient (8.71,15.3] Burkholderiales 1.26638
MG23.patient (6.27,8.71] Burkholderiales 38.28092
MG25.patient [3.18,6.27] Burkholderiales 4.72101
MG3.patient (6.27,8.71] Burkholderiales -5.32976
MG4.patient (6.27,8.71] Burkholderiales 1.64700
MG6.patient (8.71,15.3] Burkholderiales 2.23663
MG8.patient [3.18,6.27] Burkholderiales -1.74912
MG1.patient (15.3,26.4] Unclassified_Bacteria -2.08337
MG10.patient (8.71,15.3] Unclassified_Bacteria -39.16003
MG13.patient (15.3,26.4] Unclassified_Bacteria -0.33628
MG14.patient (15.3,26.4] Unclassified_Bacteria -2.86270
MG16.patient (15.3,26.4] Unclassified_Bacteria -0.56534
MG17.patient (15.3,26.4] Unclassified_Bacteria -1.49259
MG19.patient (6.27,8.71] Unclassified_Bacteria -2.70090
MG2.patient (8.71,15.3] Unclassified_Bacteria -2.80825
MG21.patient (15.3,26.4] Unclassified_Bacteria -3.49394
MG22.patient (8.71,15.3] Unclassified_Bacteria -1.14862
MG23.patient (6.27,8.71] Unclassified_Bacteria 0.88028
MG25.patient [3.18,6.27] Unclassified_Bacteria -0.89808
MG3.patient (6.27,8.71] Unclassified_Bacteria 0.08741
MG4.patient (6.27,8.71] Unclassified_Bacteria -1.28956
MG6.patient (8.71,15.3] Unclassified_Bacteria 0.71306
MG8.patient [3.18,6.27] Unclassified_Bacteria -1.04651
MG1.patient (15.3,26.4] Bifidobacteriales -40.49228
MG10.patient (8.71,15.3] Bifidobacteriales -34.83815
MG13.patient (15.3,26.4] Bifidobacteriales 31.34833
MG14.patient (15.3,26.4] Bifidobacteriales 34.66802
MG16.patient (15.3,26.4] Bifidobacteriales 33.81820
MG17.patient (15.3,26.4] Bifidobacteriales -0.09207
MG19.patient (6.27,8.71] Bifidobacteriales -1.89950
MG2.patient (8.71,15.3] Bifidobacteriales 0.10077
MG21.patient (15.3,26.4] Bifidobacteriales -37.28922
MG22.patient (8.71,15.3] Bifidobacteriales 5.87361
MG23.patient (6.27,8.71] Bifidobacteriales -38.20638
MG25.patient [3.18,6.27] Bifidobacteriales -36.52251
MG3.patient (6.27,8.71] Bifidobacteriales -35.07554
MG4.patient (6.27,8.71] Bifidobacteriales -0.46150
MG6.patient (8.71,15.3] Bifidobacteriales -33.16016
MG8.patient [3.18,6.27] Bifidobacteriales -4.29889
MG1.patient (15.3,26.4] Verrucomicrobiales 0.00000
MG10.patient (8.71,15.3] Verrucomicrobiales 35.07363
MG13.patient (15.3,26.4] Verrucomicrobiales 0.00000
MG14.patient (15.3,26.4] Verrucomicrobiales 0.00000
MG16.patient (15.3,26.4] Verrucomicrobiales 0.00000
MG17.patient (15.3,26.4] Verrucomicrobiales 0.00000
MG19.patient (6.27,8.71] Verrucomicrobiales -33.49389
MG2.patient (8.71,15.3] Verrucomicrobiales 0.00000
MG21.patient (15.3,26.4] Verrucomicrobiales -6.23569
MG22.patient (8.71,15.3] Verrucomicrobiales 3.31688
MG23.patient (6.27,8.71] Verrucomicrobiales -0.39939
MG25.patient [3.18,6.27] Verrucomicrobiales -34.02001
MG3.patient (6.27,8.71] Verrucomicrobiales 31.89262
MG4.patient (6.27,8.71] Verrucomicrobiales 0.00000
MG6.patient (8.71,15.3] Verrucomicrobiales 0.43982
MG8.patient [3.18,6.27] Verrucomicrobiales 0.00000
MG1.patient (15.3,26.4] Unclassified_Firmicutes -2.22284
MG10.patient (8.71,15.3] Unclassified_Firmicutes -38.74501
MG13.patient (15.3,26.4] Unclassified_Firmicutes -2.67542
MG14.patient (15.3,26.4] Unclassified_Firmicutes -0.50166
MG16.patient (15.3,26.4] Unclassified_Firmicutes -3.52011
MG17.patient (15.3,26.4] Unclassified_Firmicutes -0.51908
MG19.patient (6.27,8.71] Unclassified_Firmicutes -1.74750
MG2.patient (8.71,15.3] Unclassified_Firmicutes 0.32629
MG21.patient (15.3,26.4] Unclassified_Firmicutes -2.22624
MG22.patient (8.71,15.3] Unclassified_Firmicutes 1.02127
MG23.patient (6.27,8.71] Unclassified_Firmicutes -3.41730
MG25.patient [3.18,6.27] Unclassified_Firmicutes -37.24240
MG3.patient (6.27,8.71] Unclassified_Firmicutes -0.82808
MG4.patient (6.27,8.71] Unclassified_Firmicutes -1.98234
MG6.patient (8.71,15.3] Unclassified_Firmicutes -0.65911
MG8.patient [3.18,6.27] Unclassified_Firmicutes -1.76640
MG1.patient (15.3,26.4] Rhizobiales 0.01693
MG10.patient (8.71,15.3] Rhizobiales -35.57511
MG13.patient (15.3,26.4] Rhizobiales 0.57756
MG14.patient (15.3,26.4] Rhizobiales -0.72556
MG16.patient (15.3,26.4] Rhizobiales -0.39181
MG17.patient (15.3,26.4] Rhizobiales -3.63633
MG19.patient (6.27,8.71] Rhizobiales 0.00000
MG2.patient (8.71,15.3] Rhizobiales -3.62239
MG21.patient (15.3,26.4] Rhizobiales -5.79207
MG22.patient (8.71,15.3] Rhizobiales -0.69403
MG23.patient (6.27,8.71] Rhizobiales 0.00000
MG25.patient [3.18,6.27] Rhizobiales -2.20417
MG3.patient (6.27,8.71] Rhizobiales -2.30447
MG4.patient (6.27,8.71] Rhizobiales -31.53198
MG6.patient (8.71,15.3] Rhizobiales -37.40808
MG8.patient [3.18,6.27] Rhizobiales -2.28098

(1.3.1.2.5.2.4.2.1.1.1) Widget 132. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Stacked Bar Chart. Data grouped by age.quant. Click to see HTML widget file in full window: ./1.3.1.2.5.2.4.2.1.1.1-32315a4675cDynamic.Pivot.Table.html

(1.3.1.2.5.2.4.2.1.1.1) Widget 133. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Table Barchart. Data grouped by age.quant. Click to see HTML widget file in full window: ./1.3.1.2.5.2.4.2.1.1.1-323376437b0Dynamic.Pivot.Table.html

(1.3.1.2.5.2.4.2.1.1.1) Table 123. Summary table. Data grouped by age.quant. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.3.1.2.5.2.4.2.1.1.1-3237ee62e4f.1.3.1.2.5.2.4.2.1.1.csv

feature age.quant mean sd median incidence
Clostridiales [3.18,6.27] -1.99035 0.82372 -1.99035 0.0000
Clostridiales (6.27,8.71] -1.33452 1.27072 -1.72320 0.2500
Clostridiales (8.71,15.3] -1.33336 0.93392 -0.96223 0.0000
Clostridiales (15.3,26.4] -1.14442 1.54420 -1.05567 0.1667
Unclassified_Firmicutes [3.18,6.27] -19.50440 25.08532 -19.50440 0.0000
Unclassified_Firmicutes (6.27,8.71] -1.99380 1.07177 -1.86492 0.0000
Unclassified_Firmicutes (8.71,15.3] -9.51414 19.49944 -0.16641 0.5000
Unclassified_Firmicutes (15.3,26.4] -1.94423 1.20725 -2.22454 0.0000
Unclassified_Bacteria [3.18,6.27] -0.97230 0.10495 -0.97230 0.0000
Unclassified_Bacteria (6.27,8.71] -0.75569 1.57650 -0.60108 0.5000
Unclassified_Bacteria (8.71,15.3] -10.60096 19.09363 -1.97844 0.2500
Unclassified_Bacteria (15.3,26.4] -1.80570 1.25222 -1.78798 0.0000
Rhizobiales [3.18,6.27] -2.24257 0.05431 -2.24257 0.0000
Rhizobiales (6.27,8.71] -8.45911 15.42022 -1.15224 0.0000
Rhizobiales (8.71,15.3] -19.32490 19.87250 -19.59875 0.0000
Rhizobiales (15.3,26.4] -1.65855 2.50121 -0.55868 0.3333
Bacteroidales [3.18,6.27] 0.28601 0.23692 0.28601 1.0000
Bacteroidales (6.27,8.71] 0.71362 0.76818 0.45962 1.0000
Bacteroidales (8.71,15.3] -0.47986 1.45850 0.15387 0.7500
Bacteroidales (15.3,26.4] 0.12512 1.40212 0.34600 0.8333
Bifidobacteriales [3.18,6.27] -20.41070 22.78554 -20.41070 0.0000
Bifidobacteriales (6.27,8.71] -18.91073 20.52136 -18.48752 0.0000
Bifidobacteriales (8.71,15.3] -15.50598 21.49465 -16.52969 0.5000
Bifidobacteriales (15.3,26.4] 3.66016 35.43444 15.62813 0.5000
Selenomonadales [3.18,6.27] -2.68749 0.47535 -2.68749 0.0000
Selenomonadales (6.27,8.71] -1.15278 1.20236 -1.26390 0.2500
Selenomonadales (8.71,15.3] -8.91881 17.69031 -0.38935 0.2500
Selenomonadales (15.3,26.4] -0.62708 6.24146 1.04031 0.5000
Erysipelotrichales [3.18,6.27] -18.81336 24.92083 -18.81336 0.0000
Erysipelotrichales (6.27,8.71] -1.32911 3.23261 -2.13380 0.2500
Erysipelotrichales (8.71,15.3] -6.31249 19.52195 1.24568 0.7500
Erysipelotrichales (15.3,26.4] 0.83292 1.82610 0.52836 0.6667
Lactobacillales [3.18,6.27] 18.58742 21.79158 18.58742 1.0000
Lactobacillales (6.27,8.71] -10.63206 17.68493 -3.16377 0.2500
Lactobacillales (8.71,15.3] -5.01704 21.20590 3.28934 0.7500
Lactobacillales (15.3,26.4] -0.09643 2.50112 -0.19950 0.5000
Burkholderiales [3.18,6.27] 1.48595 4.57507 1.48595 0.5000
Burkholderiales (6.27,8.71] -0.37017 30.53786 -1.84138 0.5000
Burkholderiales (8.71,15.3] -10.23409 21.42826 -0.46153 0.5000
Burkholderiales (15.3,26.4] 5.03659 17.29469 -0.29898 0.5000
Enterobacteriales [3.18,6.27] -17.39473 24.59986 -17.39473 0.0000
Enterobacteriales (6.27,8.71] -8.57857 17.08530 -0.05393 0.0000
Enterobacteriales (8.71,15.3] -16.92384 19.94161 -18.24078 0.2500
Enterobacteriales (15.3,26.4] 1.21002 31.88203 5.38107 0.6667
Verrucomicrobiales [3.18,6.27] -17.01000 24.05578 -17.01000 0.0000
Verrucomicrobiales (6.27,8.71] -0.50017 26.69668 -0.19969 0.2500
Verrucomicrobiales (8.71,15.3] 9.70758 16.97455 1.87835 0.7500
Verrucomicrobiales (15.3,26.4] -1.03928 2.54571 0.00000 0.0000

(1.3.1.2.5.2.4.2.1.1.1) Figure 487. Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Data grouped by age.quant. Sorting order of features is GeneSelector paired test ranking. bar_stacked plot. Image file: plots/3232523b7d.svg.

(1.3.1.2.5.2.4.2.1.1.1) Figure 488. Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Data grouped by age.quant. Sorting order of features is GeneSelector paired test ranking. bar (sample median) plot. Image file: plots/32354ac5b87.svg.

(1.3.1.2.5.2.4.2.1.1.1) Figure 489. Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Data grouped by age.quant. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/323794c4533.svg.

(1.3.1.2.5.2.4.2.1.1.1) Figure 490. Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Data grouped by age.quant. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/32327f92eab.svg.

(1.3.1.2.5.2.4.2.1.2) Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.3.1.2.5.2.4.2.1.2.1) Figure 491. Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Data grouped by age.quant. Sorting order of features is GeneSelector paired test ranking. bar (sample median) plot. Image file: plots/323425723a1.svg.

(1.3.1.2.5.2.4.2.1.2.1) Figure 492. Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Data grouped by age.quant. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/3237bd151ca.svg.

(1.3.1.2.5.2.4.2.1.2.1) Figure 493. Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Data grouped by age.quant. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/32361883a5.svg.

(1.3.1.2.5.2.4.2.2) dodged plots. Iterating over orientation and, optionally, scaling
(1.3.1.2.5.2.4.2.2.1) Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.3.1.2.5.2.4.2.2.1.1) Figure 494. Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Data grouped by age.quant. Sorting order of features is GeneSelector paired test ranking. bar (sample median) plot. Image file: plots/323413bd5ed.svg.

(1.3.1.2.5.2.4.2.2.1.1) Figure 495. Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Data grouped by age.quant. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/3233dfe3559.svg.

(1.3.1.2.5.2.4.2.2.1.1) Figure 496. Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Data grouped by age.quant. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/32349e5f278.svg.

(1.3.1.2.5.2.4.2.2.2) Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.3.1.2.5.2.4.2.2.2.1) Figure 497. Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Data grouped by age.quant. Sorting order of features is GeneSelector paired test ranking. bar (sample median) plot. Image file: plots/3236fbb8958.svg.

(1.3.1.2.5.2.4.2.2.2.1) Figure 498. Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Data grouped by age.quant. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/323de55885.svg.

(1.3.1.2.5.2.4.2.2.2.1) Figure 499. Log2 fold change in abundance between paired samples. Samples are paired according to attribute MatchedGroupID, resulting in 16 pairs. When fold change or difference is computed, this is done as 'patient by control'. Data grouped by age.quant. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/3231b154053.svg.

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